PDB Entry (1yt7)
PDB ID: 1yt7 Resolution: 2.3 Å Exp. Method: X-RAY DIFFRACTION
PMID: 15982880 DOI: 10.1016/j.bmcl.2005.05.062
Protein
Protein Name: Cathepsin K
Uniprot ID/ACC: P43235 (CATK_HUMAN) Organism: Homo sapiens (Human)
Gene Symbol: CTSK Gene ID: 1513
Protein Class: HYDROLASE
Ligand
Ligand Name:   (1R)-2,2-DIMETHYL-1-({5-[4-(TRIFLUOROMETHYL)PHENYL]-1,3,4-OXADIAZOL-2-YL}METHYL)PROPYL (1S)-1-{OXO[(2-OXO-1,3-OXAZOLIDIN-3-YL)AMINO]ACETYL}PENTYLCARBAMATE
Canonical SMILES:   O=C1OCCN1NC(=O)C(=O)[C@H](CCCC)NC(=O)O[C@@H](C(C)(C)C)Cc2nnc(o2)-c3ccc(C(F)(F)F)cc3
Standard InChI:   InChI=1S/C26H32F3N5O7/c1-5-6-7-17(20(35)21(36)33-34-12-13-39-24(34)38)30-23(37)40-18(25(2,3)4)14-19-31-32-22(41-19)15-8-10-16(11-9-15)26(27,28)29/h8-11,17-18H,5-7,12-14H2,1-4H3,(H,30,37)(H,33,36)/t17-,18+/m0/s1
HET Code:   3FC PubChem:   5287498
DrugBank:   - ChEMBL:   CHEMBL365822
Molecular Formula:   C26H32F3N5O7 Mol. Weight:   583.2254 logP:   4.0501
HBD:   2 HBA:   9
#Rotatable Bonds:   11 TPSA:   152.96
Covalent Mechanism
Reaction Name Residue Chain ID SASA pKa Warhead Name Warhead Structure
Hemi(thio)acetalization CYS 25 A 18.35 11.54 Ketone
Binding Affinity
Database Name Value
PDBBind IC50 : 0.13 nM
BindingDB IC50 : 130 nM , IC50 : 0.13 nM